-
1
-
-
3242889975
-
Replacing suffix trees with enhanced suffix arrays
-
Abouelhoda, M.I. et al. (2004) Replacing suffix trees with enhanced suffix arrays. J. Discrete Algor., 2, 53-86.
-
(2004)
J. Discrete Algor.
, vol.2
, pp. 53-86
-
-
Abouelhoda, M.I.1
-
2
-
-
34848827224
-
Patterns of damage in genomic DNA sequences from a Neandertal
-
Briggs, A.W. et al. (2007) Patterns of damage in genomic DNA sequences from a Neandertal. Proc. Natl Acad. Sci. USA, 104, 14616-14621.
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 14616-14621
-
-
Briggs, A.W.1
-
3
-
-
67349190247
-
Linking DNA methylation and histone modification: patterns and paradigms
-
Cedar, H. and Bergman, Y. (2009) Linking DNA methylation and histone modification: patterns and paradigms. Nat. Rev. Genet., 10, 295-304.
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 295-304
-
-
Cedar, H.1
Bergman, Y.2
-
4
-
-
77951125407
-
BS Seeker: precise mapping for bisulfite sequencing
-
Chen, P.Y. et al. (2010) BS Seeker: precise mapping for bisulfite sequencing. BMC Bioinformatics, 11, 203.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 203
-
-
Chen, P.Y.1
-
5
-
-
40749109894
-
Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning
-
Cokus, S.J. et al. (2008) Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature, 452, 215-219.
-
(2008)
Nature
, vol.452
, pp. 215-219
-
-
Cokus, S.J.1
-
6
-
-
2242464840
-
The draft genome of ciona intestinalis: insights into chordate and vertebrate origins
-
Dehal, P. et al. (2002) The draft genome of ciona intestinalis: insights into chordate and vertebrate origins. Science, 298, 2157-2167.
-
(2002)
Science
, vol.298
, pp. 2157-2167
-
-
Dehal, P.1
-
7
-
-
85052166089
-
-
ed. CRC Press, Boca Raton, FL, USA
-
Esteller, M. (ed.) (2005) DNA Methylation: Approaches, Methods, and Applications. CRC Press, Boca Raton, FL, USA.
-
(2005)
DNA Methylation: Approaches, Methods, and Applications
-
-
Esteller, M.1
-
8
-
-
33947315736
-
Cancer epigenomics: DNA methylomes and histone-modification maps
-
Esteller, M. (ed.) (2007) Cancer epigenomics: DNA methylomes and histone-modification maps. Nat. Rev. Genet., 8, 286-298.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 286-298
-
-
Esteller, M.1
-
9
-
-
0026546877
-
A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNAstrands
-
Frommer, M. et al. (1992) A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNAstrands. Proc. Natl Acad. Sci. USA, 89, 1827-1831.
-
(1992)
Proc. Natl Acad. Sci. USA
, vol.89
, pp. 1827-1831
-
-
Frommer, M.1
-
10
-
-
67149086996
-
Extensive demethylation of repetitive elements during seed development underlies gene imprinting
-
Gehring, M. et al. (2009) Extensive demethylation of repetitive elements during seed development underlies gene imprinting. Science, 324, 1447-1451.
-
(2009)
Science
, vol.324
, pp. 1447-1451
-
-
Gehring, M.1
-
11
-
-
79960927422
-
Increased methylation variation in epigenetic domains across cancer types
-
Hansen, K.D. et al. (2011) Increased methylation variation in epigenetic domains across cancer types. Nat. Genet., 43, 768-775.
-
(2011)
Nat. Genet.
, vol.43
, pp. 768-775
-
-
Hansen, K.D.1
-
12
-
-
70349667200
-
Fast mapping of short sequences with mismatches, insertions and deletions using index structures
-
Hoffmann, S. et al. (2009) Fast mapping of short sequences with mismatches, insertions and deletions using index structures. PLoS Comput. Biol., 5, e1000502.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Hoffmann, S.1
-
13
-
-
77749277177
-
The behaviour of 5-hydroxymethylcytosine in bisulfite sequencing
-
Huang, Y. et al. (2010) The behaviour of 5-hydroxymethylcytosine in bisulfite sequencing. PLoS One, 5, e8888.
-
(2010)
PLoS One
, vol.5
-
-
Huang, Y.1
-
14
-
-
35248831652
-
Space efficient linear time construction of suffix arrays
-
Springer
-
Ko, P. and Aluru, S. (2003) Space efficient linear time construction of suffix arrays. In Combinatorial Pattern Matching (CPM 03), pp. 200-210. Springer.
-
(2003)
Combinatorial Pattern Matching (CPM 03)
, pp. 200-210
-
-
Ko, P.1
Aluru, S.2
-
15
-
-
79957868920
-
Bismark: a flexible aligner and methylation caller for bisulfite-seq applications
-
Krueger, F. and Andrews, S.R. (2011) Bismark: a flexible aligner and methylation caller for bisulfite-seq applications. Bioinformatics, 27, 1571-1572.
-
(2011)
Bioinformatics
, vol.27
, pp. 1571-1572
-
-
Krueger, F.1
Andrews, S.R.2
-
16
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead, B. et al. (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol., 10, R25.
-
(2009)
Genome Biol
, vol.10
-
-
Langmead, B.1
-
17
-
-
66449121652
-
Finding the fifth base: genome-wide sequencing of cytosine methylation
-
Lister, R. and Ecker, J.R. (2009) Finding the fifth base: genome-wide sequencing of cytosine methylation. Genome Res., 19, 959-966.
-
(2009)
Genome Res
, vol.19
, pp. 959-966
-
-
Lister, R.1
Ecker, J.R.2
-
18
-
-
70450217879
-
Human DNA methylomes at base resolution show widespread epigenomic differences
-
Lister, R. et al. (2009) Human DNA methylomes at base resolution show widespread epigenomic differences. Nature, 462, 315-322.
-
(2009)
Nature
, vol.462
, pp. 315-322
-
-
Lister, R.1
-
19
-
-
79952264847
-
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
-
Lister, R. et al. (2011) Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells. Nature, 471, 68-73.
-
(2011)
Nature
, vol.471
, pp. 68-73
-
-
Lister, R.1
-
20
-
-
55549097836
-
Mapping short DNA sequencing reads and calling variants using mapping quality scores
-
Li, H. et al. (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res., 18, 1851-1858.
-
(2008)
Genome Res
, vol.18
, pp. 1851-1858
-
-
Li, H.1
-
21
-
-
68549104404
-
The SequenceAlignment/Map format andSAMtools
-
Li, H. et al. (2009) The SequenceAlignment/Map format andSAMtools. Bioinformatics, 25, 2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
-
22
-
-
78649969065
-
The DNA methylome of human peripheral blood mononuclear cells
-
Li, Y. et al. (2010) The DNA methylome of human peripheral blood mononuclear cells. PLoS Biol., 8, e1000533.
-
(2010)
PLoS Biol
, vol.8
-
-
Li, Y.1
-
23
-
-
78649955848
-
The honey bee epigenomes: differential methylation of brain DNA in queens and workers
-
Lyko, F. et al. (2010) The honey bee epigenomes: differential methylation of brain DNA in queens and workers. PLoS Biol., 8, e1000506.
-
(2010)
PLoS Biol
, vol.8
-
-
Lyko, F.1
-
24
-
-
27144500218
-
Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis
-
Meissner, A. et al. (2005) Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Res., 33, 5868-5877.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5868-5877
-
-
Meissner, A.1
-
25
-
-
79957967458
-
Natural genetic variation caused by small insertions and deletions in the human genome
-
Mills, R.E. et al. (2011) Natural genetic variation caused by small insertions and deletions in the human genome. Genome Res., 21, 830-839.
-
(2011)
Genome Res
, vol.21
, pp. 830-839
-
-
Mills, R.E.1
-
26
-
-
0000541351
-
A fast bit-vector algorithm for approximate string matching based on dynamic programming
-
Myers, G. (1999) A fast bit-vector algorithm for approximate string matching based on dynamic programming. J. ACM, 46, 395-415.
-
(1999)
J. ACM
, vol.46
, pp. 395-415
-
-
Myers, G.1
-
27
-
-
77952273996
-
Computational challenges in the analysis of ancient DNA
-
Prüfer, K. et al. (2010) Computational challenges in the analysis of ancient DNA. Genome Biol., 11, R47.
-
(2010)
Genome Biol
, vol.11
-
-
Prüfer, K.1
-
28
-
-
45749086679
-
The amphioxus genome and the evolution of the chordate karyotype
-
Putnam, N.H. et al. (2008) The amphioxus genome and the evolution of the chordate karyotype. Nature, 453, 1064-1071.
-
(2008)
Nature
, vol.453
, pp. 1064-1071
-
-
Putnam, N.H.1
-
29
-
-
34249279527
-
Stability and flexibility of epigenetic gene regulation in mammalian development
-
Reik, W. (2007) Stability and flexibility of epigenetic gene regulation in mammalian development. Nature, 447, 425-432.
-
(2007)
Nature
, vol.447
, pp. 425-432
-
-
Reik, W.1
-
30
-
-
77449127799
-
MBD-isolated genome sequencing provides a high-throughput and comprehensive survey of DNA methylation in the human genome
-
Serre, D. et al. (2010) MBD-isolated genome sequencing provides a high-throughput and comprehensive survey of DNA methylation in the human genome. Nucleic Acids Res., 38, 391-399.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 391-399
-
-
Serre, D.1
-
31
-
-
70350697851
-
Updates to the RMAP short-read mapping software
-
Smith, A.D. et al. (2009) Updates to the RMAP short-read mapping software. Bioinformatics, 25, 2841-2842.
-
(2009)
Bioinformatics
, vol.25
, pp. 2841-2842
-
-
Smith, A.D.1
-
32
-
-
77956997072
-
Methylation of DNAin cancer
-
Watanabe, Y. and Maekawa, M. (2010) Methylation of DNAin cancer. Adv. Clin. Chem., 52, 145-167.
-
(2010)
Adv. Clin. Chem.
, vol.52
, pp. 145-167
-
-
Watanabe, Y.1
Maekawa, M.2
-
33
-
-
23044514626
-
Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells
-
Weber, M. et al. (2005) Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells. Nature Genet., 37, 853-862.
-
(2005)
Nature Genet
, vol.37
, pp. 853-862
-
-
Weber, M.1
-
34
-
-
34250188803
-
Genomic patterns of DNA methylation: targets and function of an epigenetic mark
-
Weber, M. and Schübeler, D. (2007) Genomic patterns of DNA methylation: targets and function of an epigenetic mark. Curr. Opin. Cell. Biol., 19, 273-280.
-
(2007)
Curr. Opin. Cell. Biol.
, vol.19
, pp. 273-280
-
-
Weber, M.1
Schübeler, D.2
-
35
-
-
77952123054
-
Single base-resolution methylome of the silkworm reveals a sparse epigenomic map
-
Xiang, H. et al. (2010) Single base-resolution methylome of the silkworm reveals a sparse epigenomic map. Nat. Biotechnol, 28, 516-520.
-
(2010)
Nat. Biotechnol
, vol.28
, pp. 516-520
-
-
Xiang, H.1
-
36
-
-
68949141599
-
BSMAP: whole genome bisulfite sequence mapping program
-
Xi, Y. and Li, W. (2009) BSMAP: whole genome bisulfite sequence mapping program. sBMC Bioinformatics, 10, 232.
-
(2009)
sBMC Bioinformatics
, vol.10
, pp. 232
-
-
Xi, Y.1
Li, W.2
|